If you remove the logs or domlogs directory, Apache likely won't start as the log files are missing. You could clear them, of course, but you would never want to remove them. At the most, you could move the domlogs to /home or another partition with more space:

As for /usr/local/cpanel directories, please do not remove anything in /usr/local/cpanel at all. You'll break functionality for various services and, even if you did remove a file not necessary for a feature working, it will simply be grabbed again on the next cPanel update.